Nextflow workflow report

[intergalactic_newton]

Workflow execution completed unsuccessfully!

The exit status of the task that caused the workflow execution to fail was: null.

The full error message was:

Error executing process > 'NFCORE_CHIPSEQ:CHIPSEQ:FILTER_BAM_BAMTOOLS:BAM_FILTER (H3K18ac_VCaP_R1881_REP1)'

Caused by:
  Process `NFCORE_CHIPSEQ:CHIPSEQ:FILTER_BAM_BAMTOOLS:BAM_FILTER (H3K18ac_VCaP_R1881_REP1)` terminated for an unknown reason -- Likely it has been terminated by the external system

Command executed:

  samtools view \
      -F 0x004 \
      -F 0x0400 \
      -q 1 \
      -L genome.include_regions.bed \
      -b H3K18ac_VCaP_R1881_REP1.mLb.mkD.sorted.bam \
      | bamtools filter \
          -out H3K18ac_VCaP_R1881_REP1.mLb.noPublish.bam \
          -script bamtools_filter_se.json
  
  cat <<-END_VERSIONS > versions.yml
  "NFCORE_CHIPSEQ:CHIPSEQ:FILTER_BAM_BAMTOOLS:BAM_FILTER":
      samtools: $(echo $(samtools --version 2>&1) | sed 's/^.*samtools //; s/Using.*$//')
      bamtools: $(echo $(bamtools --version 2>&1) | sed 's/^.*bamtools //; s/Part .*$//')
  END_VERSIONS

Command exit status:
  -

Command output:
  (empty)

Work dir:
  /input/data/work/af/e4f0f5c11fa3be18a052650adb6646

Tip: when you have fixed the problem you can continue the execution adding the option `-resume` to the run command line
Run times
18-Jan-2024 18:14:49 - 19-Jan-2024 04:46:45 (duration: 10h 31m 56s)
  1206 succeeded  
  0 cached  
  0 ignored  
  1 failed  
Nextflow command
nextflow run /input/chipseq -profile test_full -c /experiments/experiment/chipseq/nextflow.config -c /experiments/experiment/nextflow_cws.config -c /experiments/experiment/nextflow_ceph.config
CPU-Hours
272.7 (0.1% failed)
Launch directory
/experiments/experiment/launch
Work directory
/input/data/work
Project directory
/input/chipseq
Script name
main.nf
Script ID
73413072355e71512cca3175a986f037
Workflow session
ba079689-f319-4a09-abfe-2fe720a19d35
Workflow profile
test_full
Nextflow version
version 23.07.0-edge, build 5875 (28-07-2023 20:27 UTC)

Resource Usage

These plots give an overview of the distribution of resource usage for each process.

CPU

Memory

Job Duration

I/O

Tasks

This table shows information about each task in the workflow. Use the search box on the right to filter rows for specific values. Clicking headers will sort the table by that value and scrolling side to side will reveal more columns.

(tasks table omitted because the dataset is too big)